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Helical domain of Sec23/24 superfamily

SCOP classification
Root:   SCOP hierarchy in SUPERFAMILY [ 0] (11)
Class:   All alpha proteins [ 46456] (284)
Fold:   ERP29 C domain-like [ 47932] (2)
Superfamily:   Helical domain of Sec23/24 [ 81811]
Families:   Helical domain of Sec23/24 [ 81812] (2)


Superfamily statistics
Genomes (503) Uniprot 2017_06 genome PDB chains (SCOP 1.75)
Domains 2,582 6,248 4
Proteins 2,579 6,230 4


Functional annotation
General category Other
Detailed category Unknown function

Document:
Function annotation of SCOP domain superfamilies

Gene Ontology (high-coverage)

(show details)
GO term FDR (all) SDFO level Annotation (direct or inherited)
Biological Process (BP) multicellular organismal process 0.00004499 Least Informative Direct
Biological Process (BP) cellular component organization or biogenesis 0.0000000001633 Least Informative Direct
Biological Process (BP) biological regulation 0.9178 Least Informative Inherited
Biological Process (BP) single-organism cellular process 0.001081 Least Informative Inherited
Biological Process (BP) immune system process 0.0003582 Moderately Informative Direct
Biological Process (BP) organelle organization 0.0004683 Moderately Informative Direct
Biological Process (BP) cellular component assembly 0.0008546 Moderately Informative Direct
Biological Process (BP) regulation of localization 0.00007956 Moderately Informative Direct
Biological Process (BP) macromolecular complex subunit organization 0.000001078 Moderately Informative Direct
Biological Process (BP) regulation of cellular component organization 0.0007591 Moderately Informative Direct
Biological Process (BP) cellular localization 0.0000000000004482 Moderately Informative Direct
Biological Process (BP) regulation of biological quality 0.0001893 Moderately Informative Direct
Biological Process (BP) positive regulation of cellular process 0.3067 Moderately Informative Inherited
Biological Process (BP) tissue development 0.2438 Moderately Informative Inherited
Biological Process (BP) animal organ development 0.04782 Moderately Informative Inherited
Biological Process (BP) protein complex biogenesis 0.8837 Moderately Informative Inherited
Biological Process (BP) regulation of molecular function 0.02326 Moderately Informative Inherited
Biological Process (BP) nitrogen compound transport 0.9601 Moderately Informative Inherited
Biological Process (BP) single-organism transport 0.2941 Moderately Informative Inherited
Biological Process (BP) anatomical structure morphogenesis 0.01135 Moderately Informative Inherited
Biological Process (BP) macromolecule localization 0.3758 Moderately Informative Inherited
Biological Process (BP) cell differentiation 1 Moderately Informative Inherited
Biological Process (BP) regulation of developmental process 0.008077 Moderately Informative Inherited
Biological Process (BP) organic substance transport 1 Moderately Informative Inherited
Biological Process (BP) regulation of multicellular organismal process 0.017 Moderately Informative Inherited
Biological Process (BP) embryo development 0.0000001588 Informative Direct
Biological Process (BP) protein transport 0.000004025 Informative Direct
Biological Process (BP) vesicle-mediated transport 0.000000007056 Informative Direct
Biological Process (BP) regulation of anatomical structure morphogenesis 0.000005531 Informative Direct
Biological Process (BP) hemopoiesis 0.000552 Informative Direct
Biological Process (BP) positive regulation of catalytic activity 0.0005052 Informative Direct
Biological Process (BP) regulation of cellular component biogenesis 0.000004934 Informative Direct
Biological Process (BP) single-organism membrane organization 0.0001099 Informative Direct
Biological Process (BP) intracellular transport 0.00000000004712 Informative Direct
Biological Process (BP) positive regulation of transport 0.000004889 Informative Direct
Biological Process (BP) positive regulation of developmental process 0.0007839 Informative Direct
Biological Process (BP) positive regulation of cellular component organization 0.0003417 Informative Direct
Biological Process (BP) regulation of hydrolase activity 0.0001423 Informative Direct
Biological Process (BP) single-organism cellular localization 0.00000000006011 Informative Direct
Biological Process (BP) organelle localization 1 Informative Inherited
Biological Process (BP) regulation of nervous system development 0.01335 Informative Inherited
Biological Process (BP) cell development 0.07194 Informative Inherited
Biological Process (BP) animal organ morphogenesis 0.004019 Informative Inherited
Biological Process (BP) positive regulation of multicellular organismal process 0.002289 Informative Inherited
Biological Process (BP) anatomical structure formation involved in morphogenesis 0.01501 Informative Inherited
Biological Process (BP) regulation of cell differentiation 0.04604 Informative Inherited
Biological Process (BP) generation of neurons 0.00933 Informative Inherited
Biological Process (BP) regulation of cellular localization 0.001932 Informative Inherited
Biological Process (BP) regulation of organelle organization 0.00961 Informative Inherited
Biological Process (BP) regulation of secretion 0.0169 Informative Inherited
Biological Process (BP) post-embryonic development 0.1402 Informative Inherited
Biological Process (BP) cellular component morphogenesis 0.06463 Informative Inherited
Biological Process (BP) myeloid cell homeostasis 0.00004584 Highly Informative Direct
Biological Process (BP) establishment or maintenance of cell polarity 0.000008715 Highly Informative Direct
Biological Process (BP) muscle organ development 0.0002207 Highly Informative Direct
Biological Process (BP) regulation of cell shape 0.0000001292 Highly Informative Direct
Biological Process (BP) endomembrane system organization 0.0001144 Highly Informative Direct
Biological Process (BP) positive regulation of cell development 0.00009298 Highly Informative Direct
Biological Process (BP) regulation of neuron projection development 0.0001187 Highly Informative Direct
Biological Process (BP) vesicle organization 0 Highly Informative Direct
Biological Process (BP) myeloid cell differentiation 0.00005335 Highly Informative Direct
Biological Process (BP) extracellular matrix organization 0.0000000000007302 Highly Informative Direct
Biological Process (BP) tube morphogenesis 0.0001495 Highly Informative Direct
Biological Process (BP) regulation of GTPase activity 0.0000001754 Highly Informative Direct
Biological Process (BP) positive regulation of cell adhesion 0.00000007014 Highly Informative Direct
Biological Process (BP) Golgi vesicle transport 0 Highly Informative Direct
Biological Process (BP) embryonic organ development 0.0000007486 Highly Informative Direct
Biological Process (BP) positive regulation of hydrolase activity 0.000004903 Highly Informative Direct
Biological Process (BP) regulation of vesicle-mediated transport 0.000000008629 Highly Informative Direct
Biological Process (BP) plasma membrane bounded cell projection organization 0.0008576 Highly Informative Direct
Biological Process (BP) positive regulation of secretion by cell 0.000000001692 Highly Informative Direct
Biological Process (BP) regulation of cell morphogenesis involved in differentiation 0.01044 Highly Informative Inherited
Biological Process (BP) establishment of organelle localization 0.1667 Highly Informative Inherited
Biological Process (BP) positive regulation of nervous system development 0.007925 Highly Informative Inherited
Biological Process (BP) neuron development 0.1591 Highly Informative Inherited
Molecular Function (MF) binding 0.019 Least Informative Inherited
Molecular Function (MF) metal ion binding 0.0000004259 Moderately Informative Direct
Molecular Function (MF) molecular function regulator 0.001244 Moderately Informative Inherited
Molecular Function (MF) enzyme activator activity 0.00000173 Informative Direct
Molecular Function (MF) zinc ion binding 0.000000000001786 Informative Direct
Molecular Function (MF) amide binding 0.00003573 Informative Direct
Molecular Function (MF) GTPase regulator activity 0.00000006896 Highly Informative Direct
Molecular Function (MF) peptide binding 0.000003328 Highly Informative Direct
Cellular Component (CC) membrane 0.00000000008244 Least Informative Direct
Cellular Component (CC) intracellular membrane-bounded organelle 0.0000000001104 Least Informative Direct
Cellular Component (CC) protein complex 0 Least Informative Direct
Cellular Component (CC) cytoplasmic part 0.000000000135 Least Informative Direct
Cellular Component (CC) intracellular organelle part 0.000003165 Least Informative Direct
Cellular Component (CC) endomembrane system 0 Moderately Informative Direct
Cellular Component (CC) vesicle 0 Moderately Informative Direct
Cellular Component (CC) bounding membrane of organelle 0 Moderately Informative Direct
Cellular Component (CC) membrane protein complex 0 Moderately Informative Direct
Cellular Component (CC) whole membrane 0 Moderately Informative Direct
Cellular Component (CC) Golgi apparatus 0 Informative Direct
Cellular Component (CC) cytoplasmic vesicle part 0 Informative Direct
Cellular Component (CC) Golgi-associated vesicle 0 Highly Informative Direct
Cellular Component (CC) membrane coat 0 Highly Informative Direct
Cellular Component (CC) coated vesicle 0 Highly Informative Direct
Cellular Component (CC) cytoplasmic vesicle membrane 0 Highly Informative Direct
Cellular Component (CC) Golgi subcompartment 1 Highly Informative Inherited

Document: GO annotation of SCOP domains

UniProtKB KeyWords (KW)

(show details)
KW termFDR (all)SDKW levelAnnotation (direct or inherited)
Biological processTransport0Least InformativeDirect
Biological processProtein transport0Moderately InformativeDirect
Biological processER-Golgi transport0Highly InformativeDirect
Cellular componentCytoplasm0Least InformativeDirect
Cellular componentMembrane0Least InformativeDirect
Cellular componentCytoplasmic vesicle0Moderately InformativeDirect
Cellular componentGolgi apparatus0Moderately InformativeDirect
Cellular componentEndoplasmic reticulum0Moderately InformativeDirect
Molecular functionZinc0Least InformativeDirect
Molecular functionMetal-binding0Least InformativeDirect
Post-translational modificationAcetylation0.00003057Least InformativeDirect

Document: KW annotation of SCOP domains

InterPro annotation
Cross references IPR006900 SSF81811 Protein matches
Abstract

COPII (coat protein complex II)-coated vesicles carry proteins from the endoplasmic reticulum (ER) to the Golgi complex [PubMed11535824]. COPII-coated vesicles form on the ER by the stepwise recruitment of three cytosolic components: Sar1-GTP to initiate coat formation, Sec23/24 heterodimer to select SNARE and cargo molecules, and Sec13/31 to induce coat polymerisation and membrane deformation [PubMed12239560].

Sec23 p and Sec24p are structurally related, folding into five distinct domains: a beta-barrel, a zinc-finger , an alpha/beta trunk domain , an all-helical region, and a C-terminal gelsolin-like domain . This entry describes the all-helical domain, which forms an approximately 105-residue segment with the C-terminal 30 residues. The linker between alpha-M and alpha-N contacts Sar1.


InterPro database


PDBeMotif information about ligands, sequence and structure motifs
Cross references PDB entries
Ligand binding statistics
Nucleic-acid binding statistics
Occurrence of secondary structure elements
Occurrence of small 3D structural motifs

PDBeMotif resource

Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) ]

Internal database links

Browse genome assignments for this superfamily. The SUPERFAMILY hidden Markov model library has been used to carry out SCOP domain assignments to all genomes at the superfamily level.


Alignments of sequences to 2 models in this superfamily are available by clicking on the 'Alignments' icon above. PDB sequences less than 40% identical are shown by default, but any other sequence(s) may be aligned. Select PDB sequences, genome sequences, or paste in or upload your own sequences.


Browse and view proteins in genomes which have different domain combinations including a Helical domain of Sec23/24 domain.


Examine the distribution of domain superfamilies, or families, across the major taxonomic kingdoms or genomes within a kingdom. This gives an immediate impression of how superfamilies, or families, are restricted to certain kingdoms of life.


Explore domain occurrence network where nodes represent genomes and edges are domain architectures (shared between genomes) containing the superfamily of interest.

There are 2 hidden Markov models representing the Helical domain of Sec23/24 superfamily. Information on how the models are built, and plots showing hydrophobicity, match emmission probabilities and insertion/deletion probabilities can be inspected.


Jump to [ Top of page · SCOP classification · InterPro annotation · PDBeMotif links · Functional annotation · Gene Ontology (high-coverage) · UniProtKB KeyWords (KW) · Internal database links ]